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dc.contributor.authorSenabouth, A
dc.contributor.authorAndersen, S
dc.contributor.authorShi, Q
dc.contributor.authorShi, L
dc.contributor.authorJiang, F
dc.contributor.authorZhang, W
dc.contributor.authorWing, K
dc.contributor.authorDaniszewski, M
dc.contributor.authorLukowski, SW
dc.contributor.authorHung, SSC
dc.contributor.authorNguyen, Q
dc.contributor.authorFink, L
dc.contributor.authorBeckhouse, A
dc.contributor.authorPebay, A
dc.contributor.authorHewitt, AW
dc.contributor.authorPowell, JE
dc.date.accessioned2020-11-26T23:08:02Z
dc.date.available2020-11-26T23:08:02Z
dc.date.issued2020-06-01
dc.identifierpii: lqaa034
dc.identifier.citationSenabouth, A., Andersen, S., Shi, Q., Shi, L., Jiang, F., Zhang, W., Wing, K., Daniszewski, M., Lukowski, S. W., Hung, S. S. C., Nguyen, Q., Fink, L., Beckhouse, A., Pebay, A., Hewitt, A. W. & Powell, J. E. (2020). Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing. NAR GENOMICS AND BIOINFORMATICS, 2 (2), https://doi.org/10.1093/nargab/lqaa034.
dc.identifier.issn2631-9268
dc.identifier.urihttp://hdl.handle.net/11343/252120
dc.description.abstractThe libraries generated by high-throughput single cell RNA-sequencing (scRNA-seq) platforms such as the Chromium from 10× Genomics require considerable amounts of sequencing, typically due to the large number of cells. The ability to use these data to address biological questions is directly impacted by the quality of the sequence data. Here we have compared the performance of the Illumina NextSeq 500 and NovaSeq 6000 against the BGI MGISEQ-2000 platform using identical Single Cell 3' libraries consisting of over 70 000 cells generated on the 10× Genomics Chromium platform. Our results demonstrate a highly comparable performance between the NovaSeq 6000 and MGISEQ-2000 in sequencing quality, and the detection of genes, cell barcodes, Unique Molecular Identifiers. The performance of the NextSeq 500 was also similarly comparable to the MGISEQ-2000 based on the same metrics. Data generated by both sequencing platforms yielded similar analytical outcomes for general single-cell analysis. The performance of the NextSeq 500 and MGISEQ-2000 were also comparable for the deconvolution of multiplexed cell pools via variant calling, and detection of guide RNA (gRNA) from a pooled CRISPR single-cell screen. Our study provides a benchmark for high-capacity sequencing platforms applied to high-throughput scRNA-seq libraries.
dc.languageEnglish
dc.publisherOXFORD UNIV PRESS
dc.rights.urihttps://creativecommons.org/licenses/by-nc/4.0
dc.titleComparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing
dc.typeJournal Article
dc.identifier.doi10.1093/nargab/lqaa034
melbourne.affiliation.departmentAnatomy and Neuroscience
melbourne.source.titleNAR Genomics and Bioinformatics
melbourne.source.volume2
melbourne.source.issue2
melbourne.source.pageslqaa034-
melbourne.identifier.nhmrc1154389
melbourne.identifier.arcFT140100047
dc.rights.licenseCC BY-NC
melbourne.elementsid1457490
melbourne.openaccess.pmchttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC7671348
melbourne.contributor.authorDaniszewski, Maciej
melbourne.contributor.authorPebay, Alice
melbourne.contributor.authorHung, Sandy
dc.identifier.eissn2631-9268
melbourne.identifier.fundernameidNHMRC, 1154389
melbourne.identifier.fundernameidAustralian Research Council, FT140100047
melbourne.accessrightsOpen Access


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